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If you have FTouchFlo installed, you can check in \Program Files\Touch Flo (it may be a slightly different path, but it should be obvious)\FTouchFlowConfig.txt
That's just a text file, it has a lot of settings for TouchFlo, including which apps it should not be active for. Check that and see if, perhaps, it is disabled for the app you're not seeing it work for.
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